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GrammR (version 1.1.0)

Graphical Representation and Modeling of Metagenomic Reads

Description

Represents metagenomic samples on the Euclidean space to examine similarity amongst samples by studying clusters in the model. Given the matrix of metagenomic counts for samples, this package (1) quantifies dissimilarity between samples using Kendall's tau-distance, (2) constructs multidimensional models of different dimension, and (3) plots the models for visualization and comparison.

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Version

Install

install.packages('GrammR')

Monthly Downloads

3

Version

1.1.0

License

LGPL-3

Homepage

https://www.r-project.org

Maintainer

Deepak Nag Ayyala

Last Published

February 14th, 2016

Functions in GrammR (1.1.0)

Wrapper for the C program which calculates the Kendall's $\tau$-distance.

Graphical Representation and Modeling of Metagenomic Reads

Construct plots for multidimensional scaling models.

Calculate $l_p$-norm distance between samples

Graphical model construction for metagenomic data

Calculating the dissimilarity matrix for metagenomic count data

Display summary of the graphical model constructed.

Optimal Cluster Calculator

Construct plots for multidimensional scaling models.

Misclassification Error

GrammR GUI for graphical modeling and visualization

Graphical Representation without a GUI

Randomly generated Metagenomic Counts